Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity

Emelie Berglund, Jonas Maaskola, Niklas Schultz, Stefanie Friedrich, Maja Marklund, Joseph Bergenstråhle, Firas Tarish, Anna Tanoglidi, Sanja Vickovic, Ludvig Larsson, Fredrik Salmén, Christoph Ogris, Karolina Wallenborg, Jens Lagergren, Patrik Ståhl, Erik Sonnhammer, Thomas Helleday () and Joakim Lundeberg ()
Additional contact information
Emelie Berglund: School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology (KTH), Science for Life Laboratory
Jonas Maaskola: School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology (KTH), Science for Life Laboratory
Niklas Schultz: Karolinska Institutet (KI), Science for Life Laboratory
Stefanie Friedrich: Stockholm University, Science for Life Laboratory
Maja Marklund: School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology (KTH), Science for Life Laboratory
Joseph Bergenstråhle: School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology (KTH), Science for Life Laboratory
Firas Tarish: Karolinska Institutet (KI), Science for Life Laboratory
Anna Tanoglidi: University Uppsala Hospital
Sanja Vickovic: School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology (KTH), Science for Life Laboratory
Ludvig Larsson: School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology (KTH), Science for Life Laboratory
Fredrik Salmén: School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology (KTH), Science for Life Laboratory
Christoph Ogris: Stockholm University, Science for Life Laboratory
Karolina Wallenborg: Karolinska Institutet (KI), Science for Life Laboratory
Jens Lagergren: School of Computer Science and Communication, Royal Institute of Technology (KTH), Science for Life Laboratory
Patrik Ståhl: School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology (KTH), Science for Life Laboratory
Erik Sonnhammer: Stockholm University, Science for Life Laboratory
Thomas Helleday: Karolinska Institutet (KI), Science for Life Laboratory
Joakim Lundeberg: School of Engineering Sciences in Chemistry, Biotechnology and Health, Royal Institute of Technology (KTH), Science for Life Laboratory

Nature Communications, 2018, vol. 9, issue 1, 1-13

Abstract: Abstract Intra-tumor heterogeneity is one of the biggest challenges in cancer treatment today. Here we investigate tissue-wide gene expression heterogeneity throughout a multifocal prostate cancer using the spatial transcriptomics (ST) technology. Utilizing a novel approach for deconvolution, we analyze the transcriptomes of nearly 6750 tissue regions and extract distinct expression profiles for the different tissue components, such as stroma, normal and PIN glands, immune cells and cancer. We distinguish healthy and diseased areas and thereby provide insight into gene expression changes during the progression of prostate cancer. Compared to pathologist annotations, we delineate the extent of cancer foci more accurately, interestingly without link to histological changes. We identify gene expression gradients in stroma adjacent to tumor regions that allow for re-stratification of the tumor microenvironment. The establishment of these profiles is the first step towards an unbiased view of prostate cancer and can serve as a dictionary for future studies.

Date: 2018
References: Add references at CitEc
Citations: View citations in EconPapers (15)

Downloads: (external link)
https://www.nature.com/articles/s41467-018-04724-5 Abstract (text/html)

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-04724-5

Ordering information: This journal article can be ordered from
https://www.nature.com/ncomms/

DOI: 10.1038/s41467-018-04724-5

Access Statistics for this article

Nature Communications is currently edited by Nathalie Le Bot, Enda Bergin and Fiona Gillespie

More articles in Nature Communications from Nature
Bibliographic data for series maintained by Sonal Shukla () and Springer Nature Abstracting and Indexing ().